|
|
50a25e1396
|
modify run method return
|
2008-04-15 16:17:18 +00:00 |
|
|
|
ec437f9377
|
add findRankByName method to Taxonomy class
|
2008-04-15 16:15:59 +00:00 |
|
|
|
1bf519a8d8
|
extract parsing of description from fasta parsing
|
2008-04-15 16:14:33 +00:00 |
|
|
|
3b4eef7f45
|
Add unique and sort option to ecoTag
|
2008-04-15 16:13:41 +00:00 |
|
|
|
dcf8bbffcb
|
swith utils to package
|
2008-04-14 15:12:33 +00:00 |
|
|
|
594a208165
|
Add a gzip module allowing to work on stream
|
2008-04-10 10:07:22 +00:00 |
|
|
|
2fbb894412
|
Add a -x option to the ecoTag.py script
|
2008-04-10 10:00:11 +00:00 |
|
|
|
b7e93c475c
|
|
2008-04-09 16:59:27 +00:00 |
|
|
|
b742c605b5
|
dans utils.py : obitools.gzip ==> gzip
|
2008-04-09 09:46:47 +00:00 |
|
|
|
de2ccb6415
|
parser OBO commenté
|
2008-04-08 16:04:04 +00:00 |
|
|
|
52196563db
|
New API documentation generation
|
2008-04-08 15:18:28 +00:00 |
|
|
|
63000f3cd5
|
add extra function used mainly in obo parser
|
2008-04-08 15:15:43 +00:00 |
|
|
|
7383f8ec66
|
bug correction
|
2008-04-08 15:15:05 +00:00 |
|
|
|
6478c6e143
|
Add OBO ontology parser
|
2008-04-08 15:14:47 +00:00 |
|
|
|
629b0659f9
|
|
2008-04-08 11:00:08 +00:00 |
|
|
|
6605d1bdb5
|
Add a new generic parser
|
2008-04-03 05:51:41 +00:00 |
|
|
|
de2b771e19
|
Add some docs to fasta module
|
2008-03-18 17:02:40 +00:00 |
|
|
|
f5c818bff2
|
tools for parse cns data files
|
2008-03-18 15:15:46 +00:00 |
|
|
|
6e5e23c1fe
|
add a join function to join array
|
2008-03-18 15:14:54 +00:00 |
|
|
|
4fa7a3b009
|
Convert fastaComplement to the new option management system
|
2008-03-17 11:30:20 +00:00 |
|
|
|
835b7ca574
|
Convert fastaLength to the new option management system
|
2008-03-17 10:40:35 +00:00 |
|
|
|
3059874da2
|
bug correction on parsing error
|
2008-03-12 15:44:38 +00:00 |
|
|
|
fa858bebf3
|
add gbmode parameter to formatFasta function
|
2008-03-12 15:44:04 +00:00 |
|
|
|
8a1abbf1fb
|
Add an extra column in ecoTag output to indicate lower identity bound used in identification process
|
2008-03-12 15:43:07 +00:00 |
|
|
|
7835cfaf21
|
Add 'in' operator to BioSequence
|
2008-03-12 14:31:08 +00:00 |
|
|
|
12516c9a07
|
Add management of parsing error for qualifier
|
2008-03-12 14:30:30 +00:00 |
|
|
|
6d7f8d1a3b
|
Add a skipError parameter on the getFeatureTable method
|
2008-03-12 14:29:03 +00:00 |
|
|
|
7f0b6671b3
|
Add a default -D (--DEBUG) option that switch logging in debug mode.
Now all scripts have this option
|
2008-03-12 14:27:31 +00:00 |
|
|
|
e93a2ea2ec
|
Allow to define special tag regex in fasta reading functions
|
2008-03-11 16:29:31 +00:00 |
|
|
|
b73243df25
|
Add extractCDS.py script to extract CDS from Genbank DB file.
|
2008-03-10 18:29:33 +00:00 |
|
|
|
ad1c211c8d
|
remove call to old oligo module
|
2008-03-06 16:02:13 +00:00 |
|
|
|
08a709592f
|
Add functionnal version of bron and carbosh algorith for clique finding
|
2008-03-06 15:27:17 +00:00 |
|
|
|
a92f16f253
|
commit test
|
2008-03-04 17:06:56 +00:00 |
|
|
|
731fc73c4d
|
|
2008-02-19 18:02:44 +00:00 |
|
|
|
6584f069ed
|
Add log in data fetching on stderr
|
2008-02-19 18:02:06 +00:00 |
|
|
|
04f2a50a1a
|
|
2008-02-19 17:52:06 +00:00 |
|
|
|
62c87a3986
|
|
2008-02-19 17:51:23 +00:00 |
|
|
|
6dd5422caa
|
|
2008-02-19 17:21:45 +00:00 |
|
|
|
fb633f8472
|
|
2008-02-19 17:21:26 +00:00 |
|
|
|
241e01b277
|
New version of the API documentation
|
2008-02-19 17:05:59 +00:00 |
|
|
|
7ef35faac3
|
Add CacheDB class to utils module
|
2008-02-19 17:00:20 +00:00 |
|
|
|
1c58d751d3
|
patch on fastaComplement script, need to be refactored
|
2008-02-19 16:59:43 +00:00 |
|
|
|
60c0a54d73
|
Add new script to dump sequence by blast request -- initial version not fully functional
|
2008-02-19 16:58:53 +00:00 |
|
|
|
2022b632f5
|
add two new script for sequence statistics
|
2008-02-19 16:56:36 +00:00 |
|
|
|
ee8e3fa231
|
patch fasta parser to deal with extra spaces in tag values
|
2008-02-19 16:54:51 +00:00 |
|
|
|
646f3d5f72
|
code refactoring to rename oligo to word
|
2008-02-19 16:53:40 +00:00 |
|
|
|
0909345694
|
large improvement in table management
|
2008-02-19 16:52:50 +00:00 |
|
|
|
93a8e4cddc
|
modify complement encoder to deal with lower case sequences
|
2008-02-19 16:52:15 +00:00 |
|
|
|
0583a2373e
|
large improvement of the genbank access and parsing
|
2008-02-19 16:51:04 +00:00 |
|
|
|
7d65f763e4
|
obliged sequence to be in lower case
|
2008-02-19 16:50:16 +00:00 |
|
